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ASM1518v1

Organism name:
Shewanella sp. W3-18-1 (g-proteobacteria)
Taxonomy check:
OK
Infraspecific name:
Strain: W3-18-1
BioSample:
SAMN02598315
BioProject:
PRJNA13902
Submitter:
DOE Joint Genome Institute
Date:
2007/01/03
Assembly type:
na
Assembly level:
Complete Genome
Genome representation:
full
GenBank assembly accession:
GCA_000015185.1 (latest)
RefSeq assembly accession:
GCF_000015185.1 (latest)
RefSeq assembly and GenBank assembly identical:
yes

IDs: 36288 [UID] 15988 [GenBank] 36288 [RefSeq]

See Genome Information for Shewanella sp. W3-18-1

History (Show revision history)

Comment

URL -- http://www.jgi.doe.gov
JGI Project ID: 4000559
Source DNA and bacteria available from James Tiedje (tiedjej@pilot.msu.edu)
Contacts: James Tiedje (tiedjej@pilot.msu.edu)
 Paul Richardson (microbes@cuba.jgi-psf.org)
Quality assurance done by JGI-Stanford
Annotation done by JGI-ORNL and JGI-PGF
Finishing done by JGI-LLNL
Finished microbial genomes have been curated to close ... all gaps with greater than 98% coverage of at least two independent clones. Each base pair has a minimum q (quality) value of 30 and the total error rate is less than one per 50000.
The JGI and collaborators endorse the principles for the distribution and use of large scale sequencing data adopted by the larger genome sequencing community and urge users of this data to follow them. it is our intention to publish the work of this project in a timely fashion and we welcome collaborative interaction on the project and analysis.
(http://www.genome.gov/page.cfm?pageID=10506376)
The annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (PGAP). Information about PGAP can be found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/  more

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI RefSeq
Annotation Date::11/04/2022 01:19:01
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Method::Best-placed reference protein set; GeneMarkS-2+
Annotation Software revision::6.3
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::4,232
CDSs (total)::4,102
Genes (coding)::4,059
CDSs (with protein)::4,059
Genes (RNA)::130
rRNAs::9, 8, 8 (5S, 16S, 23S)
complete rRNAs::9, 8, 8 (5S, 16S, 23S)
tRNAs::100
ncRNAs::5
Pseudo Genes (total)::43
CDSs (without protein)::43
Pseudo Genes (ambiguous residues)::0 of 43
Pseudo Genes (frameshifted)::15 of 43
Pseudo Genes (incomplete)::32 of 43
Pseudo Genes (internal stop)::13 of 43
Pseudo Genes (multiple problems)::14 of 43
CRISPR Arrays::2
##Genome-Annotation-Data-END##

Global statistics

Total sequence length4,708,380
Total ungapped length4,708,380
Total number of chromosomes and plasmids1

Supplemental Content

PubMed articles for this assembly

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
Assembly Unit: Primary Assembly (GCF_000015195.1)
Molecule nameGenBank sequenceRefSeq sequence
Chromosome CP000503.1=NC_008750.1

Assembly statistics

MoleculeTotal
Length
Chromosome 4,708,380

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Shewanella sp. W3-18-1Shewanella sp. W3-18-1

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_016406325.1Shewanella putrefacienstype

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type98.7587.6494.08

ANI result

Taxonomy check statusBest match statusComment
OKgenus-matchna
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